J.F. Nijkamp | TU Delft Repository

Algorithms for sequence-based reverse metabolic engineering

Doctoral thesis (2013) - J.F. Nijkamp (author), M.J.T. Reinders (supervisor), D. de Ridder (advisor)

Exploring variation aware contig graphs for (comparative) metagenomics using MARYGOLD

Journal article (2013) - J.F. Nijkamp (author), M Pop (author), M.J.T. Reinders (author), D. de Ridder (author)

Laboratory evolution of new lactate transporter genes in a jen1¿ mutant of Saccharomyces cerevisiae and their identification as ADY2 alleles by whole-genome resequencing and transcriptome analysis

Abstract (2013) - M.A. van den Broek (author), S de Kok (author), J.F. Nijkamp (author), B.L.P. Oud (author), F Roque (author), D. de Ridder (author), J.G. Daran (author), J.T. Pronk (author), A.J.A. van Maris (author)

De novo detection of copy number variation by co-assembly

Journal article (2012) - J.F. Nijkamp (author), M.A. van den Broek (author), JMA Geertman (author), M.J.T. Reinders (author), J.G. Daran (author), D. de Ridder (author)

GRASS: a generic algorithm for scaffolding next-generation sequencing assemblies

Journal article (2012) - A. Gritsenko (author), J.F. Nijkamp (author), M.J.T. Reinders (author), D. de Ridder (author)

Laboratory evolution of new lactate transporter genes in a jen1¿ mutant of Saccharomyces cerevisiae and their identification as ADY2 alleles by whole-genome resequencing and transcriptome analysis

Journal article (2012) - S de Kok (author), J.F. Nijkamp (author), B.L.P. Oud (author), F Roque (author), D. de Ridder (author), J.G. Daran (author), J.T. Pronk (author), A.J.A. van Maris (author)

De novo sequencing, assembly and analysis of the genome of the laboratory strain Saccharomyces cerevisiae CEN.PK113-7D, a model for modern industrial biotechnology

Journal article (2012) - J.F. Nijkamp (author), M. van den Broek (author), P. Klaassen (author), CJ Paddon (author), D Platt (author), P Kotter (author), RC van Ham (author), M.J.T. Reinders (author), J.T. Pronk (author), D. de Ridder (author), J.G. Daran (author), M Datema (author), S de Kok (author), L. Bosman (author), Marijke Luttik (author), P.A.S. Daran-Lapujade (author), W Vongsangnak (author), J Nielsen (author), WHN Heijne (author)

A classifier approach to predict protein secretion in Aspergillus niger

Poster (2010) - B.A. van den Berg (author), B.A. van den Berg (author), J.F. Nijkamp (author), J.F. Nijkamp (author), M.J.T. Reinders (author), M.J.T. Reinders (author), HJ Pel (author), L Wu (author), J.A. Roubos (author)

Filamentous fungi have a high protein secretion capacity that is exploited by the fermentation industry for large-scale production of both homologous and heterologous proteins. However, many newly introduced proteins, especially heterologous, are not produced at detectable levels ...

Sequence-based prediction of protein secretion success in Aspergillus niger

Journal article (2010) - B.A. van den Berg (author), J.F. Nijkamp (author), M.J.T. Reinders (author), L Wu (author), HJ Pel (author), JA Roubos (author), D. de Ridder (author)